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OPENSEQ.org

mix 26 19

ID: 1497565171 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 672 (648)
Sequences: 1306 (950.2)
Seq/Len: 2.015
Nf(neff/√len): 37.3

HHblits Results: (2016_02)
Sequences per length for each position, BEFORE the coverage/gap filter was applied

Legend: Dots above the red line, indicates positions where there is > 5 sequences per length (if visible, green bar = 20 seq/len). Point of this graphic is to give you an idea if resubmitting a sub-portion of your sequence might help increase the overall Seq/Len (which after applying the coverage filter is at: 2.015).

Sequences per length for each position, AFTER the coverage/gap filter was applied
Legend: If visible, the positions blocked in grey are regions that have > 75% gaps and were automatically trimmed and excluded in the GREMLIN analysis.

Trim query Generate MSA using: Filter MSA GREMLIN
Start: End: E-value: Iterations: Coverage: Remove gaps: Prior:

GREMLIN Results:
Residue pairs sorted by coevolution strength:

Legend: The darker and larger the blue dots, the higher strength in covariance. Below we provide the list of the top [1.5 x length] covarying residues with sequence seperation > 3. The i and j are positions as given in the input sequence.

ij Scaled score Prob
437_E562_S2.5281.00
450_G479_I2.5121.00
446_E476_H2.3911.00
452_F592_R2.2351.00
356_A367_I2.1891.00
441_V599_R1.9830.99
653_F656_F1.9430.99
605_L610_I1.9400.99
445_A600_I1.8170.98
601_D604_K1.8020.98
424_D429_I1.7730.97
143_C151_C1.7490.97
604_K609_E1.7230.97
50_C53_C1.7060.96
424_D467_D1.6940.96
567_S594_H1.6750.96
135_C143_C1.6710.96
165_K169_A1.6660.96
447_I469_V1.6580.95
440_A528_L1.6540.95
381_V384_T1.6500.95
135_C140_H1.6290.95
22_R25_A1.5960.94
118_C132_C1.5490.93
140_H143_C1.5410.93
645_I650_Q1.5400.93
70_C78_C1.5380.92
651_S654_E1.5320.92
135_C151_C1.5320.92
140_H151_C1.5050.91
470_M479_I1.5010.91
128_Q131_K1.4930.91
53_C67_C1.4880.91
70_C86_C1.4810.91
210_Q225_E1.4770.90
37_H53_C1.4760.90
115_C118_C1.4730.90
417_M424_D1.4720.90
300_E305_F1.4640.90
121_L129_G1.4620.90
448_S452_F1.4580.90
37_H50_C1.4530.89
102_H132_C1.4500.89
501_T522_W1.4480.89
461_Y527_L1.4330.88
44_F56_F1.4330.88
70_C75_H1.4320.88
132_C135_C1.4320.88
588_E592_R1.4300.88
67_C70_C1.4210.88
380_D383_C1.4100.87
418_E478_K1.4020.87
102_H115_C1.3950.87
93_P96_D1.3890.86
50_C67_C1.3880.86
32_H41_A1.3880.86
104_F118_C1.3850.86
344_V352_K1.3830.86
512_Y547_F1.3760.86
52_H81_F1.3750.86
90_D94_D1.3730.85
370_L408_Q1.3670.85
225_E228_T1.3660.85
297_G300_E1.3620.85
74_V79_H1.3600.85
124_G129_G1.3550.84
115_C132_C1.3550.84
389_R487_E1.3540.84
461_Y498_F1.3530.84
528_L565_A1.3450.84
124_G128_Q1.3400.84
75_H78_C1.3390.83
78_C86_C1.3370.83
346_G351_G1.3230.82
203_D207_E1.3200.82
160_G163_Y1.3180.82
50_C70_C1.3160.82
204_P207_E1.3090.82
102_H118_C1.3070.81
379_D467_D1.2980.81
64_G67_C1.2960.81
112_P120_S1.2920.80
422_G425_L1.2900.80
39_F53_C1.2860.80
90_D93_P1.2860.80
34_V41_A1.2860.80
147_V152_G1.2790.79
530_E534_G1.2770.79
67_C86_C1.2750.79
109_Y113_T1.2750.79
624_E633_G1.2740.79
644_V651_S1.2600.78
220_N223_W1.2530.77
42_R46_Q1.2470.77
426_M429_I1.2440.77
89_A93_P1.2420.77
650_Q653_F1.2370.76
586_E593_E1.2360.76
101_K104_F1.2290.76
167_E171_E1.2290.76
253_N256_M1.2260.75
589_R593_E1.2250.75
165_K168_V1.2230.75
170_D174_H1.2210.75
117_H122_L1.2180.75
426_M467_D1.2180.75
348_G351_G1.2150.74
209_K212_T1.2140.74
44_F64_G1.2110.74
59_G67_C1.2100.74
314_G317_V1.2070.74
530_E592_R1.2030.73
323_D326_Q1.2020.73
39_F50_C1.2020.73
281_E284_E1.1990.73
135_C152_G1.1980.73
452_F530_E1.1920.72
631_T639_P1.1910.72
162_I165_K1.1890.72
248_D252_R1.1820.71
104_F117_H1.1820.71
31_V44_F1.1810.71
170_D173_L1.1810.71
75_H86_C1.1790.71
43_F62_K1.1790.71
168_V171_E1.1780.71
281_E286_Y1.1780.71
36_D83_T1.1770.71
140_H148_P1.1770.71
105_K111_S1.1740.71
216_R225_E1.1720.70
297_G301_L1.1720.70
179_D182_N1.1720.70
118_C140_H1.1710.70
67_C78_C1.1700.70
143_C152_G1.1680.70
532_L565_A1.1670.70
443_Y446_E1.1670.70
486_K495_T1.1660.70
486_K499_C1.1660.70
169_A172_K1.1610.69
102_H117_H1.1600.69
195_Y198_L1.1570.69
50_C78_C1.1560.69
163_Y166_A1.1560.69
115_C135_C1.1490.68
166_A169_A1.1490.68
34_V68_Q1.1480.68
37_H67_C1.1480.68
650_Q655_G1.1480.68
276_K280_Q1.1470.68
56_F65_F1.1460.68
461_Y503_D1.1440.68
627_D630_F1.1440.68
119_G122_L1.1430.68
296_E299_M1.1420.68
179_D183_L1.1400.67
44_F51_S1.1370.67
35_K41_A1.1360.67
118_C122_L1.1350.67
163_Y167_E1.1340.67
30_N394_L1.1330.67
112_P129_G1.1330.67
278_L283_G1.1310.67
497_T515_Y1.1310.67
626_F630_F1.1310.67
40_I44_F1.1250.66
117_H120_S1.1240.66
30_N90_D1.1240.66
49_F58_W1.1210.66
186_M190_G1.1210.66
119_G132_C1.1200.65
53_C56_F1.1190.65
123_Y126_I1.1160.65
345_L403_L1.1120.65
368_K387_E1.1110.65
54_T57_I1.1090.64
100_S127_H1.1090.64
41_A63_Q1.1080.64
428_H471_L1.1080.64
622_G626_F1.1080.64
567_S571_G1.1080.64
345_L348_G1.1050.64
92_G96_D1.1050.64
89_A95_T1.1050.64
278_L284_E1.1040.64
417_M426_M1.1040.64
625_N630_F1.1030.64
276_K279_N1.1020.64
263_V266_L1.1020.64
653_F657_S1.1020.64
51_S56_F1.1010.63
425_L428_H1.1000.63
143_C148_P1.0980.63
118_C151_C1.0970.63
90_D95_T1.0960.63
248_D251_T1.0950.63
116_D119_G1.0940.63
557_Y561_L1.0930.63
378_D484_M1.0930.63
549_S553_H1.0920.63
214_T219_L1.0900.62
39_F44_F1.0890.62
402_Q449_I1.0860.62
43_F49_F1.0850.62
104_F132_C1.0850.62
522_W538_F1.0850.62
222_Q225_E1.0810.61
112_P124_G1.0810.61
161_R165_K1.0780.61
470_M538_F1.0780.61
301_L304_K1.0770.61
135_C148_P1.0760.61
41_A62_K1.0760.61
359_K567_S1.0740.61
163_Y168_V1.0730.61
118_C121_L1.0730.61
339_F351_G1.0730.61
115_C119_G1.0730.61
478_K502_P1.0720.60
406_C429_I1.0720.60
51_S72_F1.0710.60
49_F54_T1.0710.60
159_R162_I1.0690.60
150_L155_H1.0690.60
124_G132_C1.0680.60
47_P53_C1.0680.60
280_Q285_Y1.0650.60
168_V172_K1.0650.60
278_L281_E1.0640.60
498_F527_L1.0610.59
92_G95_T1.0610.59
80_E88_G1.0580.59
36_D51_S1.0570.59
132_C143_C1.0560.59
213_K219_L1.0560.59
602_W606_E1.0550.59
109_Y112_P1.0550.59
375_V499_C1.0530.58
452_F456_K1.0530.58
366_A387_E1.0500.58
56_F77_R1.0490.58
109_Y122_L1.0480.58
30_N392_A1.0470.58
91_K94_D1.0470.58
49_F63_Q1.0460.58
246_D253_N1.0430.57
388_K406_C1.0420.57
163_Y170_D1.0420.57
472_D608_R1.0410.57
169_A173_L1.0410.57
161_R169_A1.0400.57
596_F602_W1.0370.57
622_G633_G1.0370.57
53_C78_C1.0360.57
232_K235_D1.0350.56
158_K162_I1.0350.56
519_V523_A1.0340.56
61_G66_Q1.0330.56
624_E629_F1.0310.56
548_Q552_E1.0300.56
167_E170_D1.0300.56
48_T58_W1.0280.56
444_A528_L1.0270.56
319_S322_E1.0260.55
115_C151_C1.0260.55
172_K175_V1.0260.55
536_P539_D1.0260.55
28_Q514_P1.0260.55
426_M430_Q1.0250.55
36_D65_F1.0250.55
437_E596_F1.0250.55
277_L282_E1.0250.55
276_K284_E1.0250.55
557_Y568_V1.0250.55
494_T516_G1.0240.55
262_G265_E1.0240.55
247_W250_T1.0230.55
159_R169_A1.0220.55
511_A551_M1.0220.55
164_L168_V1.0220.55
339_F348_G1.0210.55
345_L351_G1.0210.55
225_E246_D1.0200.55
113_T128_Q1.0200.55
484_M503_D1.0200.55
465_K481_D1.0190.55
653_F658_Y1.0180.55
129_G138_N1.0180.55
528_L568_V1.0180.55
343_M567_S1.0180.55
186_M189_N1.0170.54
104_F119_G1.0170.54
36_D56_F1.0170.54
210_Q214_T1.0160.54
586_E589_R1.0160.54
467_D503_D1.0150.54
211_K223_W1.0150.54
180_A184_I1.0140.54
59_G64_G1.0140.54
104_F147_V1.0140.54
211_K215_I1.0130.54
49_F52_H1.0130.54
219_L222_Q1.0120.54
509_I516_G1.0120.54
117_H132_C1.0120.54
47_P63_Q1.0120.54
53_C70_C1.0120.54
265_E268_K1.0110.54
243_E247_W1.0110.54
461_Y495_T1.0110.54
618_V623_A1.0110.54
281_E285_Y1.0100.54
488_H493_V1.0090.54
518_S583_C1.0090.54
206_N242_V1.0090.54
286_Y289_P1.0080.53
115_C124_G1.0080.53
187_D191_L1.0070.53
279_N282_E1.0070.53
297_G304_K1.0070.53
59_G63_Q1.0070.53
416_V565_A1.0070.53
302_R306_E1.0070.53
182_N187_D1.0060.53
461_Y486_K1.0060.53
297_G303_Q1.0050.53
109_Y120_S1.0050.53
22_R26_L1.0040.53
372_K408_Q1.0030.53
164_L167_E1.0030.53
339_F346_G1.0030.53
565_A659_V1.0020.53
347_K352_K1.0020.53
197_K201_I1.0020.53
467_D627_D1.0010.53
297_G302_R1.0010.53
223_W227_F1.0000.53
Legend: Only predictions with Scaled Score > 1 are listed. For all 3L/2 predictions, click on one of the links below.
Prob = P(contact | scaled_score, seq/len).
Scaled Score = (raw_score/average(raw_scores)).
NEW Features
HHsearch Results: (06Aug15)
GREMLIN results overlayed on top 10 PDB hits:
Legend: Blue filled circles are GREMLIN results (Scaled Score > 1). The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on 10 HHsearch results which uses the overall probability and per-position alignment confidence. Inter oligomeric contacts in the pdb are in shades of red.
PDB M Cov P(%) HHΔ  
3pfqA10.77381000.308Contact Map
2i0eA20.48511000.506Contact Map
4gv1A10.48071000.518Contact Map
4lqsA10.51641000.526Contact Map
4dc2A10.48071000.527Contact Map
4aw2A10.57291000.527Contact Map
2r5tA10.42261000.529Contact Map
3txoA10.46881000.529Contact Map
1xjdA10.41671000.531Contact Map
3a8xA20.49261000.535Contact Map
M = number of chains, if homo-oligomer
Cov = coverage of hit
P(%) = probability

Sequence Conservation (Image Generated using WebLogo v3)
Legend: Color is used to show Hydrophobicity (Blue: Hydrophilic, Green: Neutral and Black: Hydrophobic). Amount of gaps is represented by width.

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